Strain identifier
BacDive ID: 18082
Type strain:
Species: Flavonifractor plautii
Strain Designation: 265
Strain history: <- V. Bokkenheuser, 265
NCBI tax ID(s): 649753 (strain), 292800 (species)
General
@ref: 2796
BacDive-ID: 18082
DSM-Number: 6740
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-positive
description: Flavonifractor plautii 265 is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from human faeces.
NCBI tax id
NCBI tax id | Matching level |
---|---|
649753 | strain |
292800 | species |
strain history
- @ref: 2796
- history: <- V. Bokkenheuser, 265
doi: 10.13145/bacdive18082.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Clostridia
- order: Eubacteriales
- family: Oscillospiraceae
- genus: Flavonifractor
- species: Flavonifractor plautii
- full scientific name: Flavonifractor plautii (Séguin 1928) Carlier et al. 2010
synonyms
@ref synonym 20215 Fusobacterium plautii 20215 Fusobacterium plauti 20215 Clostridium orbiscindens 20215 Eubacterium plautii
@ref: 2796
domain: Bacteria
phylum: Firmicutes
class: Clostridia
order: Clostridiales
family: Oscillospiraceae
genus: Flavonifractor
species: Flavonifractor plautii
full scientific name: Flavonifractor plautii (Séguin 1928) Carlier et al. 2010
strain designation: 265
type strain: no
Morphology
cell morphology
- @ref: 69480
- gram stain: positive
- confidence: 100
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
2796 | WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339) | yes | https://mediadive.dsmz.de/medium/339 | Name: WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339) Composition: dehydrated Wilkins-Chalgren medium 33.0 g/l L-Cysteine HCl 0.3 g/l Sodium resazurin 0.0005 g/l Distilled water |
2796 | CHOPPED MEAT MEDIUM (DSMZ Medium 78) | yes | https://mediadive.dsmz.de/medium/78 | Name: CHOPPED MEAT MEDIUM (DSMZ Medium 78) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l Ethanol 9.5 g/l (optional) K2HPO4 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl 0.5 g/l Haemin 0.005 g/l (optional) Resazurin 0.001 g/l Vitamin K3 0.0005 g/l (optional) Vitamin K1 (optional) NaOH (optional) Distilled water |
culture temp
- @ref: 2796
- growth: positive
- type: growth
- temperature: 37
- range: mesophilic
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance | confidence |
---|---|---|
2796 | anaerobe | |
69480 | anaerobe | 99.669 |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 96 |
69480 | no | 99.455 |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
68380 | 16199 | urea | - | hydrolysis |
68380 | 29016 | arginine | - | hydrolysis |
68380 | 16024 | D-mannose | - | fermentation |
68380 | 16634 | raffinose | - | fermentation |
68380 | 29985 | L-glutamate | - | degradation |
68380 | 17632 | nitrate | - | reduction |
68380 | 27897 | tryptophan | - | energy source |
metabolite production
- @ref: 68380
- Chebi-ID: 35581
- metabolite: indole
- production: no
metabolite tests
- @ref: 68380
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
68380 | serine arylamidase | - | |
68380 | glutamyl-glutamate arylamidase | - | |
68380 | histidine arylamidase | - | |
68380 | glycin arylamidase | - | |
68380 | alanine arylamidase | - | 3.4.11.2 |
68380 | tyrosine arylamidase | - | |
68380 | pyrrolidonyl arylamidase | - | 3.4.19.3 |
68380 | phenylalanine arylamidase | - | |
68380 | leucyl glycin arylamidase | - | 3.4.11.1 |
68380 | proline-arylamidase | - | 3.4.11.5 |
68380 | alkaline phosphatase | - | 3.1.3.1 |
68380 | tryptophan deaminase | - | 4.1.99.1 |
68380 | alpha-fucosidase | - | 3.2.1.51 |
68380 | glutamate decarboxylase | - | 4.1.1.15 |
68380 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68380 | beta-glucuronidase | - | 3.2.1.31 |
68380 | alpha-arabinosidase | - | 3.2.1.55 |
68380 | beta-glucosidase | - | 3.2.1.21 |
68380 | alpha-glucosidase | - | 3.2.1.20 |
68380 | beta-Galactosidase 6-phosphate | - | |
68380 | beta-galactosidase | - | 3.2.1.23 |
68380 | alpha-galactosidase | - | 3.2.1.22 |
68380 | arginine dihydrolase | - | 3.5.3.6 |
68380 | urease | - | 3.5.1.5 |
API rID32A
@ref | URE | ADH Arg | alpha GAL | beta GAL | beta GP | alpha GLU | beta GLU | alpha ARA | beta GUR | beta NAG | MNE | RAF | GDC | alpha FUC | NIT | IND | PAL | ArgA | ProA | LGA | PheA | LeuA | PyrA | TyrA | AlaA | GlyA | HisA | GGA | SerA |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
2796 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | +/- | - | - | - | +/- | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
- @ref: 2796
- sample type: human faeces
- country: USA
- origin.country: USA
- continent: North America
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Human | |
#Host Body Product | #Gastrointestinal tract | #Feces (Stool) |
taxonmaps
- @ref: 69479
- File name: preview.99_447.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_91;96_299;97_331;98_372;99_447&stattab=map
- Last taxonomy: Flavonifractor plautii subclade
- 16S sequence: Y18187
- Sequence Identity:
- Total samples: 272590
- soil counts: 1740
- aquatic counts: 3332
- animal counts: 266872
- plant counts: 646
Safety information
risk assessment
- @ref: 2796
- biosafety level: 2
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 2796
- description: Clostridium orbiscindens 16S rRNA gene, partial, strain DSM 6740
- accession: Y18187
- length: 1550
- database: ena
- NCBI tax ID: 649753
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Flavonifractor plautii DSM 6740 | GCA_004345805 | scaffold | ncbi | 649753 |
66792 | Flavonifractor plautii DSM 6740 | 649753.4 | wgs | patric | 649753 |
66792 | Flavonifractor plautii DSM 6740 | 2795385455 | draft | img | 649753 |
GC content
- @ref: 2796
- GC-content: 56
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 96 | no |
motile | yes | 76.905 | no |
flagellated | no | 77.405 | no |
gram-positive | no | 51.266 | no |
anaerobic | yes | 99.517 | yes |
aerobic | no | 98.522 | yes |
halophile | no | 93.873 | no |
spore-forming | yes | 56.832 | no |
glucose-util | yes | 86.399 | no |
thermophile | no | 96.208 | yes |
glucose-ferment | yes | 61.569 | no |
External links
@ref: 2796
culture collection no.: DSM 6740, ATCC 49531
straininfo link
- @ref: 87070
- straininfo: 42536
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 1883711 | Clostridium orbiscindens sp. nov., a human intestinal bacterium capable of cleaving the flavonoid C-ring. | Winter J, Popoff MR, Grimont P, Bokkenheuser VD | Int J Syst Bacteriol | 10.1099/00207713-41-3-355 | 1991 | Base Composition, Clostridium/isolation & purification/*metabolism/ultrastructure, DNA, Bacterial/chemistry/metabolism, Feces/microbiology, Flavonoids/genetics/*metabolism, Humans, Intestines/*microbiology, Microscopy, Electron, Molecular Structure, Nucleic Acid Hybridization | Metabolism |
Phylogeny | 17684268 | Oscillibacter valericigenes gen. nov., sp. nov., a valerate-producing anaerobic bacterium isolated from the alimentary canal of a Japanese corbicula clam. | Iino T, Mori K, Tanaka K, Suzuki KI, Harayama S | Int J Syst Evol Microbiol | 10.1099/ijs.0.64717-0 | 2007 | Anaerobiosis, Animals, Base Composition, Bivalvia/*microbiology, Clostridium/classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Gastrointestinal Tract/microbiology, Japan, Molecular Sequence Data, RNA, Ribosomal, 16S/genetics, Valerates/metabolism | Metabolism |
Phylogeny | 19654357 | Proposal to unify Clostridium orbiscindens Winter et al. 1991 and Eubacterium plautii (Seguin 1928) Hofstad and Aasjord 1982, with description of Flavonifractor plautii gen. nov., comb. nov., and reassignment of Bacteroides capillosus to Pseudoflavonifractor capillosus gen. nov., comb. nov. | Carlier JP, Bedora-Faure M, K'ouas G, Alauzet C, Mory F | Int J Syst Evol Microbiol | 10.1099/ijs.0.016725-0 | 2009 | Bacterial Infections/*microbiology, Bacterial Typing Techniques, Bacteroides/*classification/genetics/isolation & purification, Base Composition, Clostridium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Eubacterium/*classification/genetics/isolation & purification, Humans, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics | Enzymology |
Metabolism | 21457417 | Isolation of catechin-converting human intestinal bacteria. | Kutschera M, Engst W, Blaut M, Braune A | J Appl Microbiol | 10.1111/j.1365-2672.2011.05025.x | 2011 | Actinobacteria/*isolation & purification/metabolism, Catechin/*metabolism, Clostridium/*isolation & purification/metabolism, Feces/microbiology, Humans, Intestinal Mucosa/metabolism, Intestines/*microbiology | Phylogeny |
Phylogeny | 24947740 | Isolation and characterization of rat intestinal bacteria involved in biotransformation of (-)-epigallocatechin. | Takagaki A, Kato Y, Nanjo F | Arch Microbiol | 10.1007/s00203-014-1006-y | 2014 | Actinobacteria/classification/genetics/*isolation & purification/metabolism, Animals, Bacteria/classification/genetics/*isolation & purification/metabolism, Biotransformation, Catechin/*analogs & derivatives/metabolism, Feces/*microbiology, Lactones/metabolism, Metabolic Networks and Pathways, Pentanoic Acids/metabolism, Rats | Metabolism |
Metabolism | 25947926 | Bioconversion of (-)-epicatechin, (+)-epicatechin, (-)-catechin, and (+)-catechin by (-)-epigallocatechin-metabolizing bacteria. | Takagaki A, Nanjo F | Biol Pharm Bull | 10.1248/bpb.b14-00813 | 2015 | Actinobacteria/metabolism, Bacteria/*metabolism, *Bioreactors, Biotransformation, Catechin/analogs & derivatives/*metabolism, Clostridium/metabolism, Hydroxylation | |
Enzymology | 33542233 | Discovery of an ene-reductase for initiating flavone and flavonol catabolism in gut bacteria. | Yang G, Hong S, Yang P, Sun Y, Wang Y, Zhang P, Jiang W, Gu Y | Nat Commun | 10.1038/s41467-021-20974-2 | 2021 | Bacterial Proteins/genetics/isolation & purification/*metabolism/ultrastructure, Clostridiales/enzymology/genetics, Crystallography, X-Ray, Flavones/*metabolism, Flavonols/*metabolism, Gastrointestinal Microbiome/*physiology, Oxidoreductases/genetics/isolation & purification/*metabolism/ultrastructure, Phylogeny, Recombinant Proteins/genetics/isolation & purification/metabolism/ultrastructure | Metabolism |
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
2796 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 6740) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-6740 | |
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
68380 | Automatically annotated from API rID32A | |||
69479 | João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |
87070 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID42536.1 | StrainInfo: A central database for resolving microbial strain identifiers |